PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Arabidopsis lyrata	scaffold_1	13	CH_aly_497	3	3	0.000313299
Arabidopsis lyrata	scaffold_6	13	CH_aly_235	4	4	0.000000652808
Arabidopsis lyrata	scaffold_6	15	CH_aly_68	3	4	0.000948455
Arabidopsis thaliana	1	13	CH_ath_467	3	3	0.000221409
Arabidopsis thaliana	5	13	CH_ath_468	3	3	0.000221409
Beta vulgaris	Bvchr1.sca001	13	CH_bvu_88	5	5	0.00000000042919
Brassica rapa	A03	13	CH_bra_466	3	3	0.000692393
Brassica rapa	A10	13	CH_bra_467	3	3	0.000692393
Brassica rapa	A03	15	CH_bra_7	3	3	0.000544577
Capsella rubella	scaffold_1	13	CH_cru_481	3	3	0.000364077
Capsella rubella	scaffold_6	13	CH_cru_482	3	3	0.000364077
Eucalyptus grandis	scaffold_1	13	CH_egr_305	7	8	0.000000000000095133
Eucalyptus grandis	scaffold_11	13	CH_egr_759	4	4	0.00000104663
Eucalyptus grandis	scaffold_4	13	CH_egr_758	4	4	0.00000104663
Fragaria vesca	LG1	13	CH_fve_496	3	3	0.000149087
Medicago truncatula	chr1	13	CH_mtr_568	4	6	0.000000878396
Solanum lycopersicum	ch01	13	CH_sly_190	5	6	0.00000000342308
Solanum tuberosum	chr04	13	CH_stu_1000	3	3	0.000341793
Thellungiella parvula	ch6-6	13	CH_tpa_270	3	3	0.000262602
Theobroma cacao	scaffold_1	13	CH_tca_507	3	3	0.000203976

Exp id	Data type	Data filter	Min genes cluster	Max genes cluster	Max cluster size	E-value	Tandems removal
1	GO	Primary GO data only.	2	30	80	0.001	X
2	GO	Primary and orthology projected GO data.	2	30	80	0.001	X
3	GO	All GO data.	2	30	80	0.001	X
4	GO	Primary GO data only.	10	150	300	0.001	X
5	GO	Primary and orthology projected GO data.	10	150	300	0.001	X
6	GO	All GO data.	10	150	300	0.001	X
7	GO	Primary GO data only.	2	30	80	0.001	V
8	GO	Primary and orthology projected GO data.	2	30	80	0.001	V
9	GO	All GO data.	2	30	80	0.001	V
10	GO	Primary GO data only.	10	150	300	0.001	V
11	GO	Primary and orthology projected GO data.	10	150	300	0.001	V
12	GO	All GO data.	10	150	300	0.001	V
13	InterPro	No filter applied.	2	30	80	0.001	X
14	InterPro	No filter applied.	10	150	300	0.001	X
15	InterPro	No filter applied.	2	30	80	0.001	V
16	InterPro	No filter applied.	10	150	300	0.001	V
17	MapMan	No filter applied.	2	30	80	0.001	X
18	MapMan	No filter applied.	10	150	300	0.001	X
19	MapMan	No filter applied.	2	30	80	0.001	V
20	MapMan	No filter applied.	10	150	300	0.001	V